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Microprotein-Encoding RNA Regulation in Cells Treated with Pro-inflammatory and Pro-Fibrotic Stimuli (RNA-Seq Caco2)

ABSTRACT: Microprotein-Encoding RNA Regulation in Cells Treated with Pro-inflammatory and Pro-Fibrotic Stimuli (RNA-Seq Caco2)

PROVIDER: PRJNA1121292 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR29322943_1.fastq.gz	Fastqsanger.gz
	SRR29322943_2.fastq.gz	Fastqsanger.gz
	SRR29322944_1.fastq.gz	Fastqsanger.gz
	SRR29322944_2.fastq.gz	Fastqsanger.gz
	SRR29322945_1.fastq.gz	Fastqsanger.gz

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Microprotein-Encoding RNA Regulation in Cells Treated with Pro-inflammatory and Pro-Fibrotic Stimuli (Ribo-Seq Caco2)

Project description:Microprotein-Encoding RNA Regulation in Cells Treated with Pro-inflammatory and Pro-Fibrotic Stimuli (Ribo-Seq Caco2)

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Microprotein-Encoding RNA Regulation in Cells Treated with Pro-inflammatory and Pro-Fibrotic Stimuli (RNA-Seq Caco2)

Project description:Recent analysis of the human proteome via proteogenomics and ribosome profiling of the transcriptome revealed the existence of thousands of previously unannotated microprotein-coding small open reading frames (smORFs). Most functional microproteins were chosen for characterization because of their evolutionary conservation. However, one example of a non-conserved immunomodulatory microprotein in mice suggests that strict sequence conservation misses some intriguing microproteins. Here, we examine the ability of gene regulation to identify human microproteins with potential roles in inflammation or fibrosis of the intestine. To do this, we collected ribosome profiling data of intestinal cell lines and peripheral blood mononuclear cells (PBMCs), and then used gene expression of microprotein-encoding transcripts to identify strongly regulated microproteins, including several examples of microproteins that are only conserved with primates. This approach reveals a number of new microproteins worthy of additional functional characterization, and provides a dataset that can be queried in different ways to find additional gut microproteins of interest.

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Microprotein-Encoding RNA Regulation in Cells Treated with Pro-inflammatory and Pro-Fibrotic Stimuli (Ribo-Seq Caco2)

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Microprotein-Encoding RNA Regulation in Cells Treated with Pro-inflammatory and Pro-Fibrotic Stimuli

Project description:Microprotein-Encoding RNA Regulation in Cells Treated with Pro-inflammatory and Pro-Fibrotic Stimuli

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Microprotein-Encoding RNA Regulation in Cells Treated with Pro-inflammatory and Pro-Fibrotic Stimuli (RNA-Seq colon cell lines)

2024-10-23 | GSE269374 | GEO

Microprotein-Encoding RNA Regulation in Cells Treated with Pro-inflammatory and Pro-Fibrotic Stimuli (Ribo-Seq colon cell lines)

2024-10-23 | GSE269371 | GEO

Microprotein-Encoding RNA Regulation in Cells Treated with Pro-inflammatory and Pro-Fibrotic Stimuli (RNA-Seq colon cell lines)

Project description:Microprotein-Encoding RNA Regulation in Cells Treated with Pro-inflammatory and Pro-Fibrotic Stimuli (RNA-Seq colon cell lines)

| PRJNA1121291 | ENA

Microprotein-Encoding RNA Regulation in Cells Treated with Pro-inflammatory and Pro-Fibrotic Stimuli (Ribo-Seq colon cell lines)

Project description:Microprotein-Encoding RNA Regulation in Cells Treated with Pro-inflammatory and Pro-Fibrotic Stimuli (Ribo-Seq colon cell lines)

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Microprotein-Encoding RNA Regulation in Cells Treated with Pro-inflammatory and Pro-Fibrotic Stimuli

Project description:This SuperSeries is composed of the SubSeries listed below.

2024-10-22 | GSE269376 | GEO

CCD18co colonic fibroblast cell line treated with various pro-inflammatory stimuli, and analized by single cell RNA sequencing (scRNA-seq) to analyze pro-fibrotic signatures

Project description:CCD18co cells are representative of colonic human fibroblasts. We wanted to understand if there was a stimulus that could induce the cells to acquire the same pro-fibrotic signatures that are found in patients with Ulcerative Colitis or Crohn's Disease. We stimulated the cells with various pro-fibrotic stimuli, and analyzed the signatures by single cell RNA sequencing (scRNA-seq)

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